Package: abctools 1.1.7

Matt Nunes

abctools: Tools for ABC Analyses

Tools for approximate Bayesian computation including summary statistic selection and assessing coverage. See Nunes and Prangle (2015) <doi:10.32614/RJ-2015-030> and Rodrigues, Prangle and Sisson (2018) <doi:10.1016/j.csda.2018.04.004>.

Authors:Matt Nunes [aut, cre], Dennis Prangle [aut], Guilherme Rodrigues [ctb]

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abctools.pdf |abctools.html✨
abctools/json (API)

# Install 'abctools' in R:

install.packages('abctools', repos = c('https://dennisprangle.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/dennisprangle/abctools/issues

Uses libs:

openblas– Optimized BLAS

Datasets:

coal - Examples of coalescent data
coalobs - Examples of coalescent data

On CRAN:

18 exports 6 stars 1.72 score 75 dependencies 2 mentions 125 scripts 557 downloads

Last updated 1 years agofrom:f8b9691b1f. Checks:OK: 7 NOTE: 2. Indexed: yes.

Target	Result	Date
Doc / Vignettes	OK	Sep 10 2024
R-4.5-win-x86_64	NOTE	Sep 10 2024
R-4.5-linux-x86_64	NOTE	Sep 10 2024
R-4.4-win-x86_64	OK	Sep 10 2024
R-4.4-mac-x86_64	OK	Sep 10 2024
R-4.4-mac-aarch64	OK	Sep 10 2024
R-4.3-win-x86_64	OK	Sep 10 2024
R-4.3-mac-x86_64	OK	Sep 10 2024
R-4.3-mac-aarch64	OK	Sep 10 2024

Exports:AS.select AS.test combmat cov.mc cov.pi covstats.mc covstats.pi fillcomb mc.ci mincrit nn.ent recalibrationABC rsse saABC selectsumm semiauto.abc sse stage2

Dependencies:abc abc.data abind backports base64enc bslib cachem checkmate cli cluster colorspace data.table digest evaluate fansi farver fastmap fontawesome foreign Formula fs ggplot2 glue gridExtra gtable highr Hmisc htmlTable htmltools htmlwidgets isoband jquerylib jsonlite knitr labeling lattice lifecycle locfit magrittr MASS Matrix MatrixModels memoise mgcv mime munsell nlme nnet pillar pkgconfig plyr quantreg R6 rappdirs RColorBrewer Rcpp rlang rmarkdown rpart rstudioapi sass scales SparseM stringi stringr survival tibble tinytex utf8 vctrs viridis viridisLite withr xfun yaml

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Tools for ABC analyses	abctools-package abctools
Summary statistics selection using approximate sufficiency.	AS.select
Test for relative approximate sufficiency between two posterior samples.	AS.test
Examples of coalescent data	coal coalobs
table of combinations	combmat combtable fillcomb
Coverage property diagnostics	cov.mc cov.pi covstats.mc covstats.pi
Diagnostic plots for model choice coverage output	mc.ci
Summary statistics selection by minimizing a posterior sample measure.	mincrit
Works out entropy of a sample.	nn.ent
ABC inference with a recalibration adjustment	recalibrationABC
Simulation error measures.	rsse sse
Summary statistic construction by semi-automatic ABC	saABC
Generic function for selecting summary statistics in ABC inference.	selectsumm
Performs semi-automatic ABC based on summary statistics regression.	semiauto.abc
stage2	stage2